Tkacik Group

Information Processing in Biological Systems

How do networks built out of biological components – neurons, signaling molecules, genes, or even cooperating organisms – process information? In contrast to engineered systems, biological networks operate under strong constraints due to noise, limited energy, or specificity, yet nevertheless perform their functions reliably. The group uses biophysics and information theory to understand the principles and mechanisms behind this remarkable phenomenon.

How can cells in a multicellular organism reproducibly decide what tissue they are going to become? How do neurons in the retina cooperate to best encode visual information into neural spikes? How does the physics at the microscopic scale, which dictates how individual regulatory molecules interact with each other, constrain the kinds of regulatory networks that are observed in real organisms today, and how can such networks evolve? These are some of the questions addressed by the Tkačik group. About half of their time is dedicated to data-driven projects performed in close collaboration with experimentalists, and half on purely theoretical projects. Their goal is to develop theoretical ideas about biological network function and connect them to high-precision data.


On this site:


Team

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Reka Borbely

PhD Student

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Mantas Gabrielaitis

Postdoc


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Michal Hledik

PhD Student

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Bor Kavcic

Postdoc

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Fabrizio Lombardi

Postdoc


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Wiktor Mlynarski

Postdoc

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Simon Rella

PhD Student

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Natalia Ruzickova

PhD Student


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Sreyam Sengupta

PhD Student


Current Projects

Visual encoding in the retina | Genetic regulation during early embryogenesis | Collective dynamics | Evolution of gene regulation


Publications

Zisis T, Schwarz J, Balles M, Kretschmer M, Nemethova M, Chait RP, Hauschild R, Lange J, Guet CC, Sixt MK, Zahler S. 2021. Sequential and switchable patterning for studying cellular processes under spatiotemporal control. ACS Applied Materials and Interfaces. 13(30), 35545–35560. View

Gabrielaitis M. 2021. Fast and accurate amplitude demodulation of wideband signals. IEEE Transactions on Signal Processing. 69, 4039–4054. View

Mlynarski WF, Hermundstad AM. 2021. Efficient and adaptive sensory codes. Nature Neuroscience. 24, 998–1009. View

Lombardi F, Shriki O, Herrmann HJ, de Arcangelis L. Long-range temporal correlations in the broadband resting state activity of the human brain revealed by neuronal avalanches. Neurocomputing. View

Chalk MJ, Tkačik G, Marre O. 2021. Inferring the function performed by a recurrent neural network. PLoS ONE. 16(4 April), e0248940. View

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Career

since 2017 Professor, IST Austria
2011 – 2016 Assistant Professor, IST Austria
2008 – 2010 Postdoc, University of Pennsylvania, Philadelphia, USA
2007 Postdoc, Princeton University, USA
2007 PhD, Princeton University, USA


Selected Distinctions

2018 HFSP Grant
2012 HFSP Grant
2003 Burroughs-Wellcome Fellowship, Princeton University
2002 Golden Sign of the University of Ljubljana


Additional Information

Open Tkacik group website



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